countGeneClassLinks: Count the number of links in a network at the level of gene...
In wanyuac/GeneMates: Analysing association and physical linkage between bacterial genes
View source: R/func__networkAnalyser__countGeneClassLinks.R
countGeneClassLinks R Documentation
Count the number of links in a network at the level of gene classes
Description
This function is useful in summarising connections between
gene classes (for example, antimicrobial classes) based on a network.
Usage
countGeneClassLinks(net, mapping, out.matrix = FALSE)
Arguments
net
A Graph object, or a data frame whose first two columns are names
of allele Y (response variable) and X (explanatory variable).
mapping
A data frame mapping allele names to gene classes. It
can be the data frame "mapping" in the output list of findPhysLink.
out.matrix
A logical argument determining whether a square matrix or a
data frame is returned.
Value
A data frame of three columns: Class_y and Class_x, the target and
source gene class, respectively; Links, link counts per kind of edge (Class_y,
Class_x).
Author(s)
Yu Wan (wanyuac@126.com)
wanyuac/GeneMates documentation built on Aug. 12, 2022, 7:37 a.m.
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View source: R/func__networkAnalyser__countGeneClassLinks.R
| countGeneClassLinks | R Documentation |
Count the number of links in a network at the level of gene classes
Description
This function is useful in summarising connections between gene classes (for example, antimicrobial classes) based on a network.
Usage
countGeneClassLinks(net, mapping, out.matrix = FALSE)
Arguments
net |
A Graph object, or a data frame whose first two columns are names of allele Y (response variable) and X (explanatory variable). |
mapping |
A data frame mapping allele names to gene classes. It can be the data frame "mapping" in the output list of findPhysLink. |
out.matrix |
A logical argument determining whether a square matrix or a data frame is returned. |
Value
A data frame of three columns: Class_y and Class_x, the target and source gene class, respectively; Links, link counts per kind of edge (Class_y, Class_x).
Author(s)
Yu Wan (wanyuac@126.com)
R Package Documentation
Browse R Packages
We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
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